How to add incoming characters from UART to a string? - python

How do I add up incoming individual characters over UART to form a string?
For exmaple:
The characters from UART are printed in following format:
\x02
1
2
3
4
5
6
7
\X03
\x02
a
b
c
d
e
f
g
\x03
and I would like output to be something like:
1234567
abcdefg
I have tried this so far:
#!/usr/bin/env python
import time
import serial
ser = serial.Serial('/dev/ttyUSB0',38400)
txt = ""
ser.flushInput()
ser.flushOutput()
while 1:
bytesToRead = ser.inWaiting()
data_raw = ser.read(1)
while 1:
if data_raw !='\x02' or data_raw !='\x03':
txt += data_raw
elif data_raw == '\x03':
break
print txt
Any ideas on how to do that? I am getting no output using this.

First of all, you don't need to call inWaiting: read will block until data is available unless you explicitly set a read timeout. Secondly, if you do insist on using it, keep in mind that the function inWaiting has been replaced by the property in_waiting.
The string /x03 is a 4-character string containing all printable characters. The string \x03, on the other hand, contains only a single non printable character with ASCII code 3. Backslash is the escape character in Python strings. \x followed by two digits is an ASCII character code. Please use backslashes where they belong. This is the immediate reason you are not seeing output: the four character string can never appear in a one-character read.
That being out of the way, the most important thing to remember is to clear your buffer when you encounter a terminator character. Let's say you want to use the inefficient method of adding to your string in place. When you reach \x03, you should print txt and just reset it back to '' instead of breaking out of the loop. A better way might be to use bytearray, which is a mutable sequence. Keep in mind also that read returns bytes, not strings in Python 3.x. This means that you should be decoding the result if you want text: txt = txt.decode('ascii').
I would suggest a further improvement, and create an infinite generator function to split your steam into strings. You could use that generator to print the strings or do anything else you wanted with them:
def getstrings(port):
buf = bytearray()
while True:
b = port.read(1)
if b == b'\x02':
del buf[:]
elif b == b'\x03':
yield buf.decode('ascii')
else:
buf.append(b)
for item in getstring(Serial(...)):
print(item)

Here's one way that I think would help you a bit
l = []
while 1:
data_raw = ser.read(1)
if data_raw !='/x02' or data_raw !='/x03':
l.append(data_raw)
elif data_raw == '/x03':
txt = "-".join(l)
print txt
I begin by creating an empty list and each time you receive a new raw_data. you append it to the list. Once you reach your ending character, you create your string and print it.
I took the liberty of removing one of the loop here to give you a simpler approach. The code will not break by itself at the end (just add a break after the print if you want to). It will print out the result whenever you reach the ending character and then wait for a next data stream to start.
If you want to see an intermediate result, you can print out each data_raw and could add right after a print of the currently joined list.
Be sure to set a timeout value to None when you open your port. That way, you will simply wait to receive one bit, process it and then return to read one bit at a time.
ser = serial.Serial(port='/dev/ttyUSB0', baudrate=38400, timeout=None)
http://pyserial.readthedocs.io/en/latest/pyserial_api.html for mor information on that.

Related

split python bytearray character by character

So, I've got some python code
string = "Python is interesting."
arr = bytearray(string, 'utf-8')
arr.split(b'\'')
which I adapted from Split String by char Character
but it returns a
[bytearray(b'Python is interesting.')]
I was hoping to split it byte-by-byte. The end goal is to pass this to a C++ boost wrapper which expects an array of bytes character-by-character. I'm using a bytearray because I'm actually working with sockets and for a given large message I want to accumulate them.
expected_length = _get_obj_size(socket)
running_length = 0
accumulator = bytearray(b'')
while running_length < expected_length:
msg = socket.recv(BUFFER_SIZE)
if msg:
running_length += len(msg)
accumulator += msg
logger.debug("Finished reading in payload")
^ the above isn't particularly relevant but I felt like it might be useful to show why I'm doing what I'm doing.
Taking the hint from #Epsi95 what about:
[chr(x) for x in list(arr)]

Read Null terminated string in python

I'm trying to read a null terminated string but i'm having issues when unpacking a char and putting it together with a string.
This is the code:
def readString(f):
str = ''
while True:
char = readChar(f)
str = str.join(char)
if (hex(ord(char))) == '0x0':
break
return str
def readChar(f):
char = unpack('c',f.read(1))[0]
return char
Now this is giving me this error:
TypeError: sequence item 0: expected str instance, int found
I'm also trying the following:
char = unpack('c',f.read(1)).decode("ascii")
But it throws me:
AttributeError: 'tuple' object has no attribute 'decode'
I don't even know how to read the chars and add it to the string, Is there any proper way to do this?
Here's a version that (ab)uses __iter__'s lesser-known "sentinel" argument:
with open('file.txt', 'rb') as f:
val = ''.join(iter(lambda: f.read(1).decode('ascii'), '\x00'))
How about:
myString = myNullTerminatedString.split("\x00")[0]
For example:
myNullTerminatedString = "hello world\x00\x00\x00\x00\x00\x00"
myString = myNullTerminatedString.split("\x00")[0]
print(myString) # "hello world"
This works by splitting the string on the null character. Since the string should terminate at the first null character, we simply grab the first item in the list after splitting. split will return a list of one item if the delimiter doesn't exist, so it still works even if there's no null terminator at all.
It also will work with byte strings:
myByteString = b'hello world\x00'
myStr = myByteString.split(b'\x00')[0].decode('ascii') # "hello world" as normal string
If you're reading from a file, you can do a relatively larger read - estimate how much you'll need to read to find your null string. This is a lot faster than reading byte-by-byte. For example:
resultingStr = ''
while True:
buf = f.read(512)
resultingStr += buf
if len(buf)==0: break
if (b"\x00" in resultingStr):
extraBytes = resultingStr.index(b"\x00")
resultingStr = resultingStr.split(b"\x00")[0]
break
# now "resultingStr" contains the string
f.seek(0 - extraBytes,1) # seek backwards by the number of bytes, now the pointer will be on the null byte in the file
# or f.seek(1 - extraBytes,1) to skip the null byte in the file
(edit version 2, added extra way at the end)
Maybe there are some libraries out there that can help you with this, but as I don't know about them lets attack the problem at hand with what we know.
In python 2 bytes and string are basically the same thing, that change in python 3 where string is what in py2 is unicode and bytes is its own separate type, which mean that you don't need to define a read char if you are in py2 as no extra work is required, so I don't think you need that unpack function for this particular case, with that in mind lets define the new readString
def readString(myfile):
chars = []
while True:
c = myfile.read(1)
if c == chr(0):
return "".join(chars)
chars.append(c)
just like with your code I read a character one at the time but I instead save them in a list, the reason is that string are immutable so doing str+=char result in unnecessary copies; and when I find the null character return the join string. And chr is the inverse of ord, it will give you the character given its ascii value. This will exclude the null character, if its needed just move the appending...
Now lets test it with your sample file
for instance lets try to read "Sword_Wea_Dummy" from it
with open("sword.blendscn","rb") as archi:
#lets simulate that some prior processing was made by
#moving the pointer of the file
archi.seek(6)
string=readString(archi)
print "string repr:", repr(string)
print "string:", string
print ""
#and the rest of the file is there waiting to be processed
print "rest of the file: ", repr(archi.read())
and this is the output
string repr: 'Sword_Wea_Dummy'
string: Sword_Wea_Dummy
rest of the file: '\xcd\xcc\xcc=p=\x8a4:\xa66\xbfJ\x15\xc6=\x00\x00\x00\x00\xeaQ8?\x9e\x8d\x874$-i\xb3\x00\x00\x00\x00\x9b\xc6\xaa2K\x15\xc6=;\xa66?\x00\x00\x00\x00\xb8\x88\xbf#\x0e\xf3\xb1#ITuB\x00\x00\x80?\xcd\xcc\xcc=\x00\x00\x00\x00\xcd\xccL>'
other tests
>>> with open("sword.blendscn","rb") as archi:
print readString(archi)
print readString(archi)
print readString(archi)
sword
Sword_Wea_Dummy
ÍÌÌ=p=Š4:¦6¿JÆ=
>>> with open("sword.blendscn","rb") as archi:
print repr(readString(archi))
print repr(readString(archi))
print repr(readString(archi))
'sword'
'Sword_Wea_Dummy'
'\xcd\xcc\xcc=p=\x8a4:\xa66\xbfJ\x15\xc6='
>>>
Now that I think about it, you mention that the data portion is of fixed size, if that is true for all files and the structure on all of them is as follow
[unknow size data][know size data]
then that is a pattern we can exploit, we only need to know the size of the file and we can get both part smoothly as follow
import os
def getDataPair(filename,knowSize):
size = os.path.getsize(filename)
with open(filename, "rb") as archi:
unknown = archi.read(size-knowSize)
know = archi.read()
return unknown, know
and by knowing the size of the data portion, its use is simple (which I get by playing with the prior example)
>>> strins_data, data = getDataPair("sword.blendscn", 80)
>>> string_data, data = getDataPair("sword.blendscn", 80)
>>> string_data
'sword\x00Sword_Wea_Dummy\x00'
>>> data
'\xcd\xcc\xcc=p=\x8a4:\xa66\xbfJ\x15\xc6=\x00\x00\x00\x00\xeaQ8?\x9e\x8d\x874$-i\xb3\x00\x00\x00\x00\x9b\xc6\xaa2K\x15\xc6=;\xa66?\x00\x00\x00\x00\xb8\x88\xbf#\x0e\xf3\xb1#ITuB\x00\x00\x80?\xcd\xcc\xcc=\x00\x00\x00\x00\xcd\xccL>'
>>> string_data.split(chr(0))
['sword', 'Sword_Wea_Dummy', '']
>>>
Now to get each string a simple split will suffice and you can pass the rest of the file contained in data to the appropriated function to be processed
Doing file I/O one character at a time is horribly slow.
Instead use readline0, now on pypi: https://pypi.org/project/readline0/ . Or something like it.
In 3.x, there's a "newline" argument to open, but it doesn't appear to be as flexible as readline0.
Here is my implementation:
import struct
def read_null_str(f):
r_str = ""
while 1:
back_offset = f.tell()
try:
r_char = struct.unpack("c", f.read(1))[0].decode("utf8")
except:
f.seek(back_offset)
temp_char = struct.unpack("<H", f.read(2))[0]
r_char = chr(temp_char)
if ord(r_char) == 0:
return r_str
else:
r_str += r_char

Returning every instance of whatever's between two strings in a file [Python 3]

What I'm trying to do is open a file, then find every instance of '[\x06I"' and '\x06;', then return whatever is between the two.
Since this is not a standard text file (it's map data from RPG maker) readline() will not work for my purposes, as the file is not at all formatted in such a way that the data I want is always neatly within one line by itself.
What I'm doing right now is loading the file into a list with read(), then simply deleting characters from the very beginning until I hit the string '[\x06I'. Then I scan ahead to find '\x06;', store what's between them as a string, append said string to a list, then resume at the character after the semicolon I found.
It works, and I ended up with pretty much exactly what I wanted, but I feel like that's the worst possible way to go about it. Is there a more efficient way?
My relevant code:
while eofget == 0:
savor = 0
while savor == 0 or eofget == 0:
if line[0:4] == '[\x06I"':
x = 4
spork = 0
while spork == 0:
x += 1
if line[x] == '\x06':
if line[x+1] == ';':
spork = x
savor = line[5:spork] + "\n"
line = line[x+1:]
linefinal[lineinc] = savor
lineinc += 1
elif line[x:x+7] == '#widthi':
print("eof reached")
spork = 1
eofget = 1
savor = 0
elif line[x:x+7] == '#widthi':
print("finished map " + mapname)
eofget = 1
savor = 0
break
else:
line = line[1:]
You can just ignore the variable names. I just name things the first thing that comes to mind when I'm doing one-offs like this. And yes, I am aware a few things in there don't make any sense, but I'm saving cleanup for when I finalize the code.
When eofget gets flipped on this subroutine terminates and the next map is loaded. Then it repeats. The '#widthi' check is basically there to save time, since it's present in every map and indicates the beginning of the map data, AKA data I don't care about.
I feel this is a natural case to use regular expressions. Using the findall method:
>>> s = 'testing[\x06I"text in between 1\x06;filler text[\x06I"text in between 2\x06;more filler[\x06I"text in between \n with some line breaks \n included in the text\x06;ending'
>>> import re
>>> p = re.compile('\[\x06I"(.+?)\x06;', re.DOTALL)
>>> print(p.findall(s))
['text in between 1', 'text in between 2', 'text in between \n with some line breaks \n included in the text']
The regex string '\[\x06I"(.+?)\x06;'can be interpreted as follows:
Match as little as possible (denoted by ?) of an undetermined number of unspecified characters (denoted by .+) surrounded by '[\x06I"' and '\x06;', and only return the enclosed text (denoted by the parentheses around .+?)
Adding re.DOTALL in the compile makes the .? match line breaks as well, allowing multi-line text to be captured.
I would use split():
fulltext = 'adsfasgaseg[\x06I"thisiswhatyouneed\x06;sdfaesgaegegaadsf[\x06I"this is the second what you need \x06;asdfeagaeef'
parts = fulltext.split('[\x06I"') # split by first label
results = []
for part in parts:
if '\x06;' in part: # if second label exists in part
results.append(part.split('\x06;')[0]) # get the part until the second label
print results

How to find null byte in a string in Python?

I'm having an issue parsing data after reading a file. What I'm doing is reading a binary file in and need to create a list of attributes from the read file all of the data in the file is terminated with a null byte. What I'm trying to do is find every instance of a null byte terminated attribute.
Essentially taking a string like
Health\x00experience\x00charactername\x00
and storing it in a list.
The real issue is I need to keep the null bytes in tact, I just need to be able to find each instance of a null byte and store the data that precedes it.
Python doesn't treat NUL bytes as anything special; they're no different from spaces or commas. So, split() works fine:
>>> my_string = "Health\x00experience\x00charactername\x00"
>>> my_string.split('\x00')
['Health', 'experience', 'charactername', '']
Note that split is treating \x00 as a separator, not a terminator, so we get an extra empty string at the end. If that's a problem, you can just slice it off:
>>> my_string.split('\x00')[:-1]
['Health', 'experience', 'charactername']
While it boils down to using split('\x00') a convenience wrapper might be nice.
def readlines(f, bufsize):
buf = ""
data = True
while data:
data = f.read(bufsize)
buf += data
lines = buf.split('\x00')
buf = lines.pop()
for line in lines:
yield line + '\x00'
yield buf + '\x00'
then you can do something like
with open('myfile', 'rb') as f:
mylist = [item for item in readlines(f, 524288)]
This has the added benefit of not needing to load the entire contents into memory before splitting the text.
To check if string has NULL byte, simply use in operator, for example:
if b'\x00' in data:
To find the position of it, use find() which would return the lowest index in the string where substring sub is found. Then use optional arguments start and end for slice notation.
Split on null bytes; .split() returns a list:
>> print("Health\x00experience\x00charactername\x00".split("\x00"))
['Health', 'experience', 'charactername', '']
If you know the data always ends with a null byte, you can slice the list to chop off the last empty string (like result_list[:-1]).

Python: Read large file in chunks

Hey there, I have a rather large file that I want to process using Python and I'm kind of stuck as to how to do it.
The format of my file is like this:
0 xxx xxxx xxxxx xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
1 xxx xxxx xxxxx xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
So I basically want to read in the chunk up from 0-1, do my processing on it, then move on to the chunk between 1 and 2.
So far I've tried using a regex to match the number and then keep iterating, but I'm sure there has to be a better way of going about this. Any suggestion/info would be greatly appreciated.
If they are all within the same line, that is there are no line breaks between "1." and "2." then you can iterate over the lines of the file like this:
for line in open("myfile.txt"):
#do stuff
The line will be disposed of and overwritten at each iteration meaning you can handle large file sizes with ease. If they're not on the same line:
for line in open("myfile.txt"):
if #regex to match start of new string
parsed_line = line
else:
parsed_line += line
and the rest of your code.
Why don't you just read the file char by char using file.read(1)?
Then, you could - in each iteration - check whether you arrived at the char 1. Then you have to make sure that storing the string is fast.
If the "N " can only start a line, then why not use use the "simple" solution? (It sounds like this already being done, I am trying to reinforce/support it ;-))
That is, just reading a line at a time, and build up the data representing the current N object. After say N=0, and N=1 are loaded, process them together, then move onto the next pair (N=2, N=3). The only thing that is even remotely tricky is making sure not to throw out a read line. (The line read that determined the end condition -- e.g. "N " -- also contain the data for the next N).
Unless seeking is required (or IO caching is disabled or there is an absurd amount of data per item), there is really no reason not to use readline AFAIK.
Happy coding.
Here is some off-the-cuff code, which likely contains multiple errors. In any case, it shows the general idea using a minimized side-effect approach.
# given an input and previous item data, return either
# [item_number, data, next_overflow] if another item is read
# or None if there are no more items
def read_item (inp, overflow):
data = overflow or ""
# this can be replaced with any method to "read the header"
# the regex is just "the easiest". the contract is just:
# given "N ....", return N. given anything else, return None
def get_num(d):
m = re.match(r"(\d+) ", d)
return int(m.groups(1)) if m else None
for line in inp:
if data and get_num(line) ne None:
# already in an item (have data); current line "overflows".
# item number is still at start of current data
return [get_num(data), data, line]
# not in item, or new item not found yet
data += line
# and end of input, with data. only returns above
# if a "new" item was encountered; this covers case of
# no more items (or no items at all)
if data:
return [get_num(data), data, None]
else
return None
And usage might be akin to the following, where f represents an open file:
# check for error conditions (e.g. None returned)
# note feed-through of "overflow"
num1, data1, overflow = read_item(f, None)
num2, data2, overflow = read_item(f, overflow)
If the format is fixed, why not just read 3 lines at a time with readline()
If the file is small, you could read the whole file in and split() on number digits (might want to use strip() to get rid of whitespace and newlines), then fold over the list to process each string in the list. You'll probably have to check that the resultant string you are processing on is not initially empty in case two digits were next to each other.
If the file's content can be loaded in memory, and that's what you answered, then the following code (needs to have filename defined) may be a solution.
import re
regx = re.compile('^((\d+).*?)(?=^\d|\Z)',re.DOTALL|re.MULTILINE)
with open(filename) as f:
text = f.read()
def treat(inp,regx=regx):
m1 = regx.search(inp)
numb,chunk = m1.group(2,1)
li = [chunk]
for mat in regx.finditer(inp,m1.end()):
n,ch = mat.group(2,1)
if int(n) == int(numb) + 1:
yield ''.join(li)
numb = n
li = []
li.append(ch)
chunk = ch
yield ''.join(li)
for y in treat(text):
print repr(y)
This code, run on a file containing :
1 mountain
orange 2
apple
produce
2 gas
solemn
enlightment
protectorate
3 grimace
song
4 snow
wheat
51 guludururu
kelemekinonoto
52asabi dabada
5 yellow
6 pink
music
air
7 guitar
blank 8
8 Canada
9 Rimini
produces:
'1 mountain\norange 2\napple\nproduce\n'
'2 gas\nsolemn\nenlightment\nprotectorate\n'
'3 grimace\nsong\n'
'4 snow\nwheat\n51 guludururu\nkelemekinonoto\n52asabi dabada\n'
'5 yellow\n'
'6 pink \nmusic\nair\n'
'7 guitar\nblank 8\n'
'8 Canada\n'
'9 Rimini'

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